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Magnesium in PDB 4ddw: Thermotoga Maritima Reverse Gyrase, C-Centered Orthorhombic Form

Enzymatic activity of Thermotoga Maritima Reverse Gyrase, C-Centered Orthorhombic Form

All present enzymatic activity of Thermotoga Maritima Reverse Gyrase, C-Centered Orthorhombic Form:
3.6.4.12; 5.99.1.3;

Protein crystallography data

The structure of Thermotoga Maritima Reverse Gyrase, C-Centered Orthorhombic Form, PDB code: 4ddw was solved by M.G.Rudolph, D.Klostermeier, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.75 / 3.90
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 174.325, 175.646, 104.135, 90.00, 90.00, 90.00
R / Rfree (%) 20.9 / 28.9

Other elements in 4ddw:

The structure of Thermotoga Maritima Reverse Gyrase, C-Centered Orthorhombic Form also contains other interesting chemical elements:

Zinc (Zn) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Thermotoga Maritima Reverse Gyrase, C-Centered Orthorhombic Form (pdb code 4ddw). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Thermotoga Maritima Reverse Gyrase, C-Centered Orthorhombic Form, PDB code: 4ddw:

Magnesium binding site 1 out of 1 in 4ddw

Go back to Magnesium Binding Sites List in 4ddw
Magnesium binding site 1 out of 1 in the Thermotoga Maritima Reverse Gyrase, C-Centered Orthorhombic Form


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Thermotoga Maritima Reverse Gyrase, C-Centered Orthorhombic Form within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1204

b:0.2
occ:1.00
OG1 A:THR107 2.0 0.5 1.0
OD1 A:ASP203 2.1 0.5 1.0
O1 A:POP1203 2.5 0.1 1.0
CG A:ASP203 3.1 0.6 1.0
CB A:THR107 3.2 0.6 1.0
OD2 A:ASP203 3.4 0.8 1.0
N A:THR107 3.5 0.4 1.0
P1 A:POP1203 3.8 0.9 1.0
CA A:THR107 3.8 0.4 1.0
CB A:LYS106 4.1 0.3 1.0
O3 A:POP1203 4.2 0.2 1.0
O2 A:POP1203 4.3 0.4 1.0
CG2 A:THR107 4.4 0.8 1.0
CB A:ASP203 4.4 0.9 1.0
C A:LYS106 4.5 0.4 1.0
O4 A:POP1203 4.7 1.0 1.0
CA A:LYS106 4.8 0.4 1.0

Reference:

M.G.Rudolph, Y.Del Toro Duany, S.P.Jungblut, A.Ganguly, D.Klostermeier. Crystal Structures of Thermotoga Maritima Reverse Gyrase: Inferences For the Mechanism of Positive Dna Supercoiling. Nucleic Acids Res. V. 41 1058 2013.
ISSN: ISSN 0305-1048
PubMed: 23209025
DOI: 10.1093/NAR/GKS1073
Page generated: Mon Dec 14 12:08:37 2020

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